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(-) Description

Title :  2.05 ANGSTROM CRYSTAL STRUCTURE OF PUTATIVE 5'-NUCLEOTIDASE FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH ALPHA-KETOGLUTARATE
 
Authors :  G. Minasov, Z. Wawrzak, S. N. Krishna, A. Halavaty, L. Shuvalova, I. Dub J. Winsor, O. Kiryukhina, F. Bagnoli, F. Falugi, M. Bottomley, G. Gran W. F. Anderson, Center For Structural Genomics Of Infectious D (Csgid)
Date :  21 Jan 11  (Deposition) - 09 Feb 11  (Release) - 09 Feb 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Phosphoesterase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  G. Minasov, Z. Wawrzak, S. N. Krishna, A. Halavaty, L. Shuvalova, I. Dubrovska, J. Winsor, O. Kiryukhina, F. Bagnoli, F. Falugi, M. Bottomley, G. Grandi, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
2. 05 Angstrom Crystal Structure Of Putative 5'-Nucleotidase From Staphylococcus Aureus In Complex With Alpha-Ketoglutarate.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET 15B
    Expression System StrainBL21 MAGIC
    Expression System Taxid511693
    Expression System Vector TypePLASMID
    GeneSAOUHSC_00107
    Organism ScientificSTAPHYLOCOCCUS AUREUS SUBSP. AUREUS
    Organism Taxid93061
    StrainNCTC 8325
    SynonymPUTATIVE 5'-NUCLEOTIDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 16)

Asymmetric/Biological Unit (6, 16)
No.NameCountTypeFull Name
1AKG1Ligand/Ion2-OXOGLUTARIC ACID
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MN1Ligand/IonMANGANESE (II) ION
4MSE11Mod. Amino AcidSELENOMETHIONINE
5PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
6ZN1Ligand/IonZINC ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:11 , HIS A:13 , ASP A:56 , HIS A:233 , MN A:513 , HOH A:623 , HOH A:720BINDING SITE FOR RESIDUE ZN A 512
2AC2SOFTWAREASP A:56 , ASN A:93 , HIS A:191 , HIS A:231 , ZN A:512 , HOH A:623BINDING SITE FOR RESIDUE MN A 513
3AC3SOFTWAREHIS A:94 , PHE A:370 , ASN A:372 , PHE A:416 , TYR A:461 , HOH A:548 , HOH A:687 , HOH A:723BINDING SITE FOR RESIDUE AKG A 514
4AC4SOFTWAREASN A:82 , ASN A:111 , SER A:425 , MSE A:442 , ASP A:506 , HOH A:602BINDING SITE FOR RESIDUE PEG A 515
5AC5SOFTWAREPHE A:349 , ASP A:350 , PRO A:413 , GLN A:414 , HIS A:415 , PHE A:416BINDING SITE FOR RESIDUE EDO A 516

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3QFK)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:410 -Pro A:411

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3QFK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3QFK)

(-) Exons   (0, 0)

(no "Exon" information available for 3QFK)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:510
 aligned with Q2G1L5_STAA8 | Q2G1L5 from UniProtKB/TrEMBL  Length:511

    Alignment length:510
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511
         Q2G1L5_STAA8     2 SNIAFYVVSDVHGYIFPTDFTSRNQYQPMGLLLANHVIEQDRRQYDQSFKIDNGDFLQGSPFCNYLIAHSGSSQPLVDFYNRMAFDFGTLGNHEFNYGLPYLKDTLRRLNYPVLCANIYENDSTLTDNGVKYFQVGDQTVGVIGLTTQFIPHWEQPEHIQSLTFHSAFEILQQYLPEMKRHADIIVVCYHGGFEKDLESGTPTEVLTGENEGYAMLEAFSKDIDIFITGHQHRQIAERFKQTAVIQPGTRGTTVGRVVLSTDEYENLSVESCELLPVIDDSTFTIDEDDQHLRKQLEDWLDYEITTLPYDMTINHAFEARVAPHPFTNFMNYALLEKSDADVACTALFDSASGFKQVVTMRDVINNYPFPNTFKVLAVSGAKLKEAIERSAEYFDVKNDEVSVSADFLEPKPQHFNYDIYGGVSYTIHVGRPKGQRVSNMMIQGHAVDLKQTYTICVNNYRAVGGGQYDMYIDAPVVKDIQVEGAQLLIDFLSNNNLMRIPQVVDFKVEK 511
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains --Metallophos-3qfkA01 A:4-235                                                                                                                                                                                                             --------------------------------------------------------------------5_nucleotid_C-3qfkA02 A:304-474                                                                                                                                            ------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....................hhhhhhhhhhhhhh...eeeeee.......hhhhhhhhhh...hhhhhhhhhhh...ee..hhhhhh.hhhhhhhhhhhh........eee..ee.....eeeeee..eeeeeeeee..hhhhh.hhhhhh.eee.hhhhhhhhhhhhhhhhh.eeeeeee....................hhhhhhhhhhhhh.eee......eeeeee..eeeeee.....eeeeeeeee.....eeeeeeeeee.........hhhhhhhhhhhhhhhh.eeee....ee....hhhhhh.hhhhhhhhhhhhhhhh..eeeee......ee..eeehhhhhhhh.....eeeeeeehhhhhhhhhhhhh.eeee..eeee.hhhh....hhhh.eeee..eeeee........eeeee..........eeeeeeehhhhh....hhhhh...eeeee..hhhhhhhhhhhhh.........eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qfk A   2 SNIAFYVVSDVHGYIFPTDFTSRNQYQPmGLLLANHVIEQDRRQYDQSFKIDNGDFLQGSPFCNYLIAHSGSSQPLVDFYNRmAFDFGTLGNHEFNYGLPYLKDTLRRLNYPVLCANIYENDSTLTDNGVKYFQVGDQTVGVIGLTTQFIPHWEQPEHIQSLTFHSAFEILQQYLPEmKRHADIIVVCYHGGFEKDLESGTPTEVLTGENEGYAmLEAFSKDIDIFITGHQHRQIAERFKQTAVIQPGTRGTTVGRVVLSTDEYENLSVESCELLPVIDDSTFTIDEDDQHLRKQLEDWLDYEITTLPYDmTINHAFEARVAPHPFTNFmNYALLEKSDADVACTALFDSASGFKQVVTmRDVINNYPFPNTFKVLAVSGAKLKEAIERSAEYFDVKNDEVSVSADFLEPKPQHFNYDIYGGVSYTIHVGRPKGQRVSNmmIQGHAVDLKQTYTICVNNYRAVGGGQYDmYIDAPVVKDIQVEGAQLLIDFLSNNNLmRIPQVVDFKVEK 511
                                    11        21        31        41        51        61        71        81  |     91       101       111       121       131       141       151       161       171       181       191       201       211    |  221       231       241       251       261       271       281       291       301       311|      321       331       341       351       361       371       381       391       401       411       421       431       441|      451       461       471       481       491       501       511
                                                       30-MSE                                                84-MSE                                                                                        179-MSE                              216-MSE                                                                                         312-MSE            331-MSE                       361-MSE                                                                         441-MSE                       471-MSE                     499-MSE        
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  442-MSE                                                                 

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3QFK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QFK)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q2G1L5_STAA8 | Q2G1L5)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016788    hydrolase activity, acting on ester bonds    Catalysis of the hydrolysis of any ester bond.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0009166    nucleotide catabolic process    The chemical reactions and pathways resulting in the breakdown of nucleotides, any nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic-nucleotides (nucleoside cyclic phosphates).

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